Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006639.1 Hibiscus syriacus cultivar Beakdansim tig00016352_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 117367
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:10720 original size:5 final size:5
Alignment explanation
Indices: 10710--10743 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
10700 TTCGAAGTGG
10710 TACCA TACCA TACCA TACCA TACCA TACCA TACC
1 TACCA TACCA TACCA TACCA TACCA TACCA TACC
10744 GAACACACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (5 bp):
TACCA
Found at i:11327 original size:16 final size:15
Alignment explanation
Indices: 11299--11330 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
11289 CAAGACCATA
11299 ATATTATTTTTATAT
1 ATATTATTTTTATAT
11314 ATATTATATTTTATAT
1 ATATTAT-TTTTATAT
11330 A
1 A
11331 AATAAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTATTTTTATAT
Found at i:13641 original size:29 final size:29
Alignment explanation
Indices: 13577--13678 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
13567 ATTTATTTGT
* * *
13577 TTTTGGTCCCTTAAGTTTCTATTTTTTCTA
1 TTTTAGTCCCTTAACTTTCTA-TTTTTATA
* *
13607 GTTTAGTCCCTTAACTTTCTATTTTGATA
1 TTTTAGTCCCTTAACTTTCTATTTTTATA
*
13636 TTTTAGTCCTTTAACTTT-TATTTTTATTA
1 TTTTAGTCCCTTAACTTTCTATTTTTA-TA
* *
13665 TTTTAATCCTTTAA
1 TTTTAGTCCCTTAA
13679 ATTTATGTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 7 0.11
29 37 0.60
30 18 0.29
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.59
Consensus pattern (29 bp):
TTTTAGTCCCTTAACTTTCTATTTTTATA
Found at i:13689 original size:29 final size:29
Alignment explanation
Indices: 13608--13689 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
13598 TTTTTTCTAG
* * * *
13608 TTTAGTCCCTTAACTTTCTATTTTGA-TAT
1 TTTAATCCTTTAACATT-TATTTTTATTAT
* *
13637 TTTAGTCCTTTAACTTTTATTTTTATTAT
1 TTTAATCCTTTAACATTTATTTTTATTAT
13666 TTTAATCCTTTAA-ATTTATGTTTT
1 TTTAATCCTTTAACATTTAT-TTTT
13690 TTGTTCTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 12 0.26
29 35 0.74
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (29 bp):
TTTAATCCTTTAACATTTATTTTTATTAT
Found at i:13700 original size:31 final size:30
Alignment explanation
Indices: 13656--13721 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
13646 TTAACTTTTA
13656 TTTTTATTATTTTAATCCTT-TAAATTTATGT
1 TTTTTATTATTTTAAT-CTTGTAAATTT-TGT
* * *
13687 TTTTTGTTCTTTTAGTCTTGTAAATTTTGT
1 TTTTTATTATTTTAATCTTGTAAATTTTGT
13717 TTTTT
1 TTTTT
13722 CTATTTAGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.18, C:0.06, G:0.08, T:0.68
Consensus pattern (30 bp):
TTTTTATTATTTTAATCTTGTAAATTTTGT
Found at i:14033 original size:21 final size:21
Alignment explanation
Indices: 14009--14048 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13999 TTCAATTCAT
14009 TTTTACTTTACTTTTATTTTG
1 TTTTACTTTACTTTTATTTTG
* *
14030 TTTTATTTTATTTTTATTT
1 TTTTACTTTACTTTTATTT
14049 GTCCTTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTACTTTACTTTTATTTTG
Found at i:14046 original size:11 final size:11
Alignment explanation
Indices: 14007--14048 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
13997 TTTTCAATTC
*
14007 ATTTTTACTTT
1 ATTTTTATTTT
*
14018 ACTTTTATTTT
1 ATTTTTATTTT
*
14029 -GTTTTATTTT
1 ATTTTTATTTT
14039 ATTTTTATTT
1 ATTTTTATTT
14049 GTCCTTATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:14056 original size:21 final size:21
Alignment explanation
Indices: 14015--14056 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14005 TCATTTTTAC
*
14015 TTTACTTTTATTTTGTTTTAT
1 TTTACTTTTATTTTGTCTTAT
*
14036 TTTATTTTTA-TTTGTCCTTAT
1 TTTACTTTTATTTTGT-CTTAT
14057 GAAAATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTACTTTTATTTTGTCTTAT
Found at i:17015 original size:3 final size:3
Alignment explanation
Indices: 17007--17035 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16997 GTATACCCAG
17007 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17036 ATATATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:19172 original size:28 final size:28
Alignment explanation
Indices: 19140--19221 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
19130 GAAACAAATC
19140 ATCTTTGAGTTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTTTGTTTTTCTTGAAACAA
* *
19168 ATCTTTGAATCTGTTTCTT-TTGAAACAA
1 ATCTTTGAGTTTGTTT-TTCTTGAAACAA
*
19196 ATCTTTGAG-TCGATTTTTCTTGAAAC
1 ATCTTTGAGTTTG-TTTTTCTTGAAAC
19222 TATAATTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 3 0.07
28 41 0.89
29 2 0.04
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (28 bp):
ATCTTTGAGTTTGTTTTTCTTGAAACAA
Found at i:19526 original size:132 final size:131
Alignment explanation
Indices: 19231--19708 Score: 530
Period size: 131 Copynumber: 3.6 Consensus size: 131
19221 CTATAATTCC
* * *
19231 TAAAGATGGCC-AGCCATCCTCATCACGTAGGAACCGTATCATCCCCCGACCAGACCTCCTCACC
1 TAAAGATGGCCTA-CAATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATC
* ** * *
19295 ACGTAAGAGCCATGTCATACCTAGATAA-CATGTCATCCTCATCACGTAGGAACTGTGTTATCAT
65 ACGTAGGAGCCATGTCACCCCTAGATAACCA-ATCATCCTCATCACGTAAGAACTGTGTTATCAT
*
19359 CCC
129 CCT
* ** * *
19362 TAAATATGGCCTACCGTCCTCGTCACGTAGGAACCGTGTCATCCCCCGACTAGACCTCCTCATCA
1 TAAAGATGGCCTACAATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCA
* * * * *
19427 CGTAGGAGCCGTGTCACCCCCTAAATAACCAACCATCCTCATCACGTAAAAATTGTGTTATCATC
66 CGTAGGAGCCATGTCA-CCCCTAGATAACCAATCATCCTCATCACGTAAGAACTGTGTTATCATC
19492 CT
130 CT
* ** * *
19494 TAAAGATAGCCTATTATCCTCATCACGTAGGAACCGTGTCATCCCCTGACCATACCTCCTCATCA
1 TAAAGATGGCCTACAATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCA
* * * *
19559 CGTAGGAGCCATGTCACCCCTAGATAACCAATCATCCTCATCGCGTAAGAACCGAGTTATCCTCC
66 CGTAGGAGCCATGTCACCCCTAGATAACCAATCATCCTCATCACGTAAGAACTGTGTTATCATCC
19624 TT
131 -T
* * * * * * * *
19626 CCTAAAGATGGCC-AGAACTCTTCATAACGTATGAGCCTTGTCATCCCCCGAACAGATCTCCTCA
1 --TAAAGATGGCCTACAA-TCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCA
* *
19690 TCACGTAGAAGCCGTGTCA
63 TCACGTAGGAGCCATGTCA
19709 TCCTCAGACG
Statistics
Matches: 291, Mismatches: 49, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
131 112 0.38
132 111 0.38
133 4 0.01
134 64 0.22
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (131 bp):
TAAAGATGGCCTACAATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCA
CGTAGGAGCCATGTCACCCCTAGATAACCAATCATCCTCATCACGTAAGAACTGTGTTATCATCC
T
Found at i:19737 original size:43 final size:40
Alignment explanation
Indices: 19637--19743 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 40
19627 CTAAAGATGG
* * *
19637 CCAGAACTCTTCATAACGTATGAGCCTTGTCATCCCCCGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCACGA
* * *
19677 ACAGATCTCCTCATCACGTA-GAAGCCGTGTCATCCTCAGACGA
1 CCAGAACTCTTCATCACGTATG-AGCCGTGTCATCC-C--ACGA
*
19720 CCAGACCTCTTCATCACGTATGAG
1 CCAGAACTCTTCATCACGTATGAG
19744 TTGTGTCGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 1 0.02
40 28 0.53
41 1 0.02
43 22 0.42
44 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCACGA
Found at i:19930 original size:3 final size:3
Alignment explanation
Indices: 19924--19970 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
19914 ATTATTATTA
*
19924 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
19971 AATACAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:21325 original size:28 final size:30
Alignment explanation
Indices: 21264--21337 Score: 100
Period size: 28 Copynumber: 2.5 Consensus size: 30
21254 GTAAATATCT
*
21264 TATTTTAGTCCCTTAACTTTCTATTTTTGA
1 TATTTTAGTCCTTTAACTTTCTATTTTTGA
21294 TATTTTAGTCCTTTAAC-TT-TATTTTT-A
1 TATTTTAGTCCTTTAACTTTCTATTTTTGA
*
21321 CTATTTTAATCCTTTAA
1 -TATTTTAGTCCTTTAA
21338 ATATCTGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 1 0.02
28 22 0.54
29 2 0.05
30 16 0.39
ACGTcount: A:0.23, C:0.15, G:0.04, T:0.58
Consensus pattern (30 bp):
TATTTTAGTCCTTTAACTTTCTATTTTTGA
Found at i:30563 original size:139 final size:139
Alignment explanation
Indices: 30311--30949 Score: 913
Period size: 139 Copynumber: 4.6 Consensus size: 139
30301 AACAAAATGG
* * * * *
30311 TGAACAAGTCCTTCTCATTATGAACTTTTTCTACCTCATCGGATGATTTCTTCTCCTTATGAACT
1 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACT
* * * * * * * * *
30376 CTCCACTGGAAATATTGATTCCACGAGTGAGGTGCTATTGATTTAACTCTATATGTAATGAATCA
66 CTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGATGAATCG
30441 AGTTAAGGT
131 AGTTAAGGT
* * *
30450 TGAACAAGTTCTTCTCGTTATGAACTTTTTCTCCCTCATCGGATGAGTTTTTCTCATTATGAACT
1 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACT
*
30515 CTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGATGAATCG
66 CTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGATGAATCG
*
30580 AGCTAAGGT
131 AGTTAAGGT
* * *
30589 TGAACAAGTTCTTCTCATCATGAACGTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTATGAACT
1 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACT
* * * * *
30654 CTCTC-CTGGAAATATTGATCCCTCGAATGTGGTGTTGTTGATTCGACTCCATATGTGATGAATT
66 CTC-CACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGATGAATC
30718 GA-TCTAAGGT
130 GAGT-TAAGGT
* * *
30728 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATCGAATGAGTTATTCTCATTATGAACT
1 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACT
* * * ** *
30793 CTCCACTGGAAATGTTGATCCCTCAAGTGAGGTATTGTTGATTCAAGTGTATATGTGATGAATTG
66 CTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGATGAATCG
30858 AGTTAAGGT
131 AGTTAAGGT
*
30867 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCAGATGAGTTCTTCTCATTATGAACT
1 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACT
30932 CTCCACTGGAAATGTTGA
66 CTCCACTGGAAATGTTGA
30950 CTGGTTTATC
Statistics
Matches: 447, Mismatches: 49, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
138 1 0.00
139 444 0.99
140 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (139 bp):
TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTATGAACT
CTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGTTGATTCAACTCCATATGTGATGAATCG
AGTTAAGGT
Found at i:31767 original size:239 final size:243
Alignment explanation
Indices: 31340--31840 Score: 719
Period size: 239 Copynumber: 2.1 Consensus size: 243
31330 GTGACTCGAG
* *
31340 GGACTTACTAAGTAAGAAACTTTGGGAATCATTTTCTTACCTTTTAAAATAACTTAATTTTCAGA
1 GGACTTACTAAGTAAGAAACTTTGGAAATCATTTTCTTACCTTTTAAAATAACTCAATTTTCAGA
*** *
31405 AAAGATTTAAATGAGAAACTTTGAAAATTGCTTTCTCATTGTTTTTGAAAATCATGTGAAAACAT
66 AAAGATTTAAATGAGAAACTTTGAAAATCAATTTCTCATTGTTTTTAAAAATCATGTGAAAACAT
* *
31470 CCTGCCCGAATGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGA
131 CCTGCCCGAAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTATAGATGA
* *
31535 CCCGGAGGATTTAGGCATCATACTCAAAAGCCTTACTGATGGCCCAAA
196 CCCGAAGGATTTAAGCATCATACTCAAAAGCCTTACTGATGGCCCAAA
* * * *
31583 GGATTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTA-CTTTTCAAA-AA-TCAATTTTTAGA
1 GGACTTACTAAGTAAGAAACTTTGGAAATCATTTTCTTACCTTTTAAAATAACTCAATTTTCAG-
*
31645 AAAAGATTTAAATGAGAAACTTTGGAAATCAATTTCTCA-T-TTTTTAAAAATCATGTGAAAACA
65 AAAAGATTTAAATGAGAAACTTTGAAAATCAATTTCTCATTGTTTTTAAAAATCATGTGAAAACA
* * *
31708 TCCTGTCCGAAGGTCTTATGGATGGCCCGAAAGATTTATCATCTTGTTCGAAAGACTTATAGATG
130 TCCTGCCCGAAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTATAGATG
* * ** * *
31773 ACCTGAAGGATTTAAGCATCATGCTTGAATGCCTTACTGATGGCCCGAA
195 ACCCGAAGGATTTAAGCATCATACTCAAAAGCCTTACTGATGGCCCAAA
31822 GGACTT-CTAA-TCAAGAAAC
1 GGACTTACTAAGT-AAGAAAC
31841 CCTTGAAAAT
Statistics
Matches: 231, Mismatches: 25, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
237 1 0.00
238 11 0.05
239 128 0.55
240 10 0.04
241 37 0.16
242 8 0.03
243 36 0.16
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (243 bp):
GGACTTACTAAGTAAGAAACTTTGGAAATCATTTTCTTACCTTTTAAAATAACTCAATTTTCAGA
AAAGATTTAAATGAGAAACTTTGAAAATCAATTTCTCATTGTTTTTAAAAATCATGTGAAAACAT
CCTGCCCGAAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTATAGATGA
CCCGAAGGATTTAAGCATCATACTCAAAAGCCTTACTGATGGCCCAAA
Found at i:31962 original size:54 final size:53
Alignment explanation
Indices: 31888--32493 Score: 349
Period size: 55 Copynumber: 11.2 Consensus size: 53
31878 TTACAGTTAT
* * *
31888 CATCAAGAAACCCCTAAAAATTAGGCTCAGTTTCTTTAAAAATTCATTTGAAAG
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTT-AAAATTCATTTGAAAA
* * *
31942 CATCAAGAAACCCCTGAAAATCAGGCTTAGATTCTTTCAAATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAATTCATTTGAAAA
* * * *
31995 CATCAAGAAACCCCTAAAAATTAAGCTTAGCTTCTTTAAAATTCATTCGAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAATTCATTTGAAAA
* * * * **
32048 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTT-TTTAAAA--AAATT-ATCA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAG-TTTCTTTAAAATTCATTTGAAAA
** * * * *
32098 TGTCAAGAAACCTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCA-TTAAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTT-AAAATTCATTTGAAAA
*** * * * * *
32151 TCATCAAGAAATTTCTTAAAATCAGACTTAGATTCTTTAAAAGCTCATTTAAAAA
1 -CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAA-TTCATTTGAAAA
* ** ** * * * * *
32206 TCATCCAGTGACTTCTGAAAATCAGACATAGTTTCTTTGAAAACTCATTTAAAAA
1 -CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTT-AAAATTCATTTGAAAA
* ** * * * * *
32261 TCATGAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTAAAAGCTCATTTAAAAA
1 -CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAA-TTCATTTGAAAA
* * ** * ** * *
32316 TCATCTAGAGACTTCTGAAAATCATACTTAGTTTCTTTGAAAACTCATTTAAAAAA
1 -CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTT-AAAATTCATTT-GAAAA
*** * * ** *
32372 TCATCAAGAAACTTTTGAAAATCAGACTTAGTTTCTTTTAAAGGTCATTTAAAAA
1 -CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTC-TTTAAAATTCATTTGAAAA
* * * * ** * * *
32427 TCATAAACAAACCCTTTAAAATCATACTTAGTTTTTTTAAAAGGTCATTTAAAAAA
1 -CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAA-TTCATTT-GAAAA
*
32483 AATCAAGAAAC
1 CATCAAGAAAC
32494 TTATGAAAAT
Statistics
Matches: 464, Mismatches: 72, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
49 3 0.01
50 29 0.06
51 6 0.01
52 2 0.00
53 101 0.22
54 80 0.17
55 182 0.39
56 58 0.12
57 3 0.01
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (53 bp):
CATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTTAAAATTCATTTGAAAA
Found at i:32203 original size:55 final size:55
Alignment explanation
Indices: 32100--32776 Score: 655
Period size: 55 Copynumber: 12.6 Consensus size: 55
32090 AATTATCATG
* * *
32100 TCAAGAAACCTCTAAAAATCAGACTTAGTTTCTTTAAAAACTCA-TTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
* * *
32154 TCAAGAAATTTCTTAAAATCAGACTTAGATTCTTTAAAAGCTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
* ** *
32209 TCCAGTGACTTCTGAAAATCAGACATAGTTTCTTTGAAAA-CTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTT-AAAAGCTCATTTAAAAATCA
* *
32264 TGAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTAAAAGCTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
* * *
32319 TCTAGAGACTTCTGAAAATCATACTTAGTTTCTTTGAAAA-CTCATTTAAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTT-AAAAGCTCATTT-AAAAATCA
* * *
32375 TCAAGAAACTTTTGAAAATCAGACTTAGTTTCTTTTAAAGGTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
* * * * * **
32430 TAAACAAACCCTT-T-AAAATCATACTTAGTTTTTTTAAAAGGTCATTTAAAAAAAA
1 TCAAGAAA--CTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
* * * ** * *
32485 TCAAGAAACTTATGAAAATCAGAGTAAACTTATTTGAAAA--TCA-TCAAGAAA-C-
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTT-AAAAGCTCATTTAA-AAATCA
* * * * *
32537 T--------TT-TAAAAATCAGACTTAATTTCTTTGATAGCTCATTT-AAAATAA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
* * * * *
32582 TCAAGAAACATCCGAAAATCGGATTTAGTTTCTTTAAAAGCTCATTTAAAAATAA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
* * * *
32637 TCAAGAAACTTC-CAAAATAAGACTTAGTTCCTTTAAAAACTCATTT-AAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
* * *
32690 T-AAAAAACTTCT-AAAATTCATACTTAGTTTCTTTAAAAACTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAAA-TCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
* *
32744 TCAAGAAACTTCTAAAAATCAAACTTAGTTTCT
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCT
32777 AAAAAAACAC
Statistics
Matches: 514, Mismatches: 77, Indels: 63
0.79 0.12 0.10
Matches are distributed among these distances:
42 2 0.00
43 21 0.04
44 6 0.01
45 2 0.00
52 14 0.03
53 40 0.08
54 114 0.22
55 250 0.49
56 62 0.12
57 3 0.01
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (55 bp):
TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAATCA
Found at i:32513 original size:20 final size:19
Alignment explanation
Indices: 32481--32527 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
32471 TCATTTAAAA
32481 AAAATCAAGAAACTTA-TG
1 AAAATCAAGAAACTTATTG
32499 AAAATCAGAGTAAACTTATTTG
1 AAAATCA-AG-AAACTTA-TTG
32521 AAAATCA
1 AAAATCA
32528 TCAAGAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.28
19 2 0.08
20 7 0.28
22 9 0.36
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (19 bp):
AAAATCAAGAAACTTATTG
Found at i:32561 original size:153 final size:151
Alignment explanation
Indices: 32368--32647 Score: 382
Period size: 152 Copynumber: 1.8 Consensus size: 151
32358 ACTCATTTAA
* * * * *
32368 AAAATCATCAAGAAACTTTTGAAAATCAGACTTAGTTTCTTTTAAAGGTCATTTAAAAATCATAA
1 AAAATCATCAAGAAACTTTTAAAAATCAGACTTAATTTCTTTGAAAGCTCATTT-AAAATAATAA
* * * *
32433 ACAAAC-CCTTTAAAATCATACTTAGTTTTTTTAAAAGGTCATTTAAAAAAAATCAAGAAACTTA
65 ACAAACACC--GAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAAAAATCAAGAAACTTA
32497 TGAAAATCAGAGTAAACTTATTTG
128 TGAAAATCAGAGTAAACTTATTTG
* *
32521 AAAATCATCAAGAAACTTTTAAAAATCAGACTTAATTTCTTTGATAGCTCATTTAAAATAATCAA
1 AAAATCATCAAGAAACTTTTAAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAAAATAATAAA
* * * *
32586 GAAACATCCGAAAATCGGATTTAGTTTCTTTAAAAGCTCATTTAAAAATAATCAAGAAACTT
66 CAAACA-CCGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAAAAATCAAGAAACTT
32648 CCAAAATAAG
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
152 59 0.54
153 49 0.45
154 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (151 bp):
AAAATCATCAAGAAACTTTTAAAAATCAGACTTAATTTCTTTGAAAGCTCATTTAAAATAATAAA
CAAACACCGAAAATCAGACTTAGTTTCTTTAAAAGCTCATTTAAAAAAAATCAAGAAACTTATGA
AAATCAGAGTAAACTTATTTG
Found at i:32585 original size:54 final size:55
Alignment explanation
Indices: 32510--32776 Score: 308
Period size: 54 Copynumber: 4.9 Consensus size: 55
32500 AAATCAGAGT
* * * * *
32510 AAACTTATTTGAAAATCATCAAGAAACTTTTAAAAATCAGACTTAATTTCTTTGA
1 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAA
* * * * ** * *
32565 TAGCTCATTT-AAAATAATCAAGAAACATCCGAAAATCGGATTTAGTTTCTTTAA
1 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAA
* * * * *
32619 AAGCTCATTTAAAAATAATCAAGAAACTTC-CAAAATAAGACTTAGTTCCTTTAA
1 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAA
* * *
32673 AAACTCATTT-AAAATCAT-AAAAAACTTCTAAAATTCATACTTAGTTTCTTTAA
1 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAA
*
32726 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAAACTTAGTTTCT
1 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCT
32777 AAAAAAACAC
Statistics
Matches: 178, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
52 9 0.05
53 36 0.20
54 80 0.45
55 53 0.30
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (55 bp):
AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTAA
Found at i:32782 original size:107 final size:109
Alignment explanation
Indices: 32510--32776 Score: 317
Period size: 107 Copynumber: 2.5 Consensus size: 109
32500 AAATCAGAGT
* * * * * * * *
32510 AAACTTATTTGAAAATCATCAAGAAACTTTTAAAAATCAGACTTAATTTCTTTGATAGCTCATTT
1 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAAACTTAGTTTCTTTAAAAACTCATTT
* * *
32575 AAAATAATCAAGAAACATCCGAAAATCGGATTTAGTTTCTTTAA
66 AAAATAATCAAAAAACATCCGAAAATCAGACTTAGTTTCTTTAA
* * * *
32619 AAGCTCATTTAAAAATAATCAAGAAACTTC-CAAAAT-AAGACTTAGTTCCTTTAAAAACTCATT
1 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAA-ACTTAGTTTCTTTAAAAACTCATT
* * * *
32682 TAAAATCAT-AAAAAAC-TTCTAAAATTCATACTTAGTTTCTTTAA
65 TAAAATAATCAAAAAACATCCGAAAA-TCAGACTTAGTTTCTTTAA
32726 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAAACTTAGTTTCT
1 AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAAACTTAGTTTCT
32777 AAAAAAACAC
Statistics
Matches: 131, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
106 6 0.05
107 51 0.39
108 47 0.36
109 27 0.21
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.34
Consensus pattern (109 bp):
AAACTCATTTAAAAATCATCAAGAAACTTCTAAAAATCAAACTTAGTTTCTTTAAAAACTCATTT
AAAATAATCAAAAAACATCCGAAAATCAGACTTAGTTTCTTTAA
Found at i:32955 original size:2 final size:2
Alignment explanation
Indices: 32948--32979 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32938 ATAAGAATTA
32948 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
32980 AATGAATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:35141 original size:64 final size:63
Alignment explanation
Indices: 35058--35264 Score: 204
Period size: 65 Copynumber: 3.2 Consensus size: 63
35048 ATTAAGAGTT
* *
35058 CATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGTG
1 CATCGATGCATCAAATGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGG-TGGTG
* ** * * *
35122 CATCGATGCATCAAATGCATTTGATGTTTTCATAAA-ATCCTCAGTGCATTGGTGCATGGTAAGT
1 CATCGATGCATCAAATGCATTCGATG-TTTCA-AAATATCCAGAGTGCATCGATGCATGGT-GGT
35186 G
63 G
* ** *
35187 CATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATG-GTGCATCGATGCATGGATTGG
1 CATCGATGCATCAAATGCATTCGATGTTTCAAAAT-ATCCA-GAGTGCATCGATGCATGG--TGG
35250 TG
62 TG
*
35252 CATCGGTGCATCA
1 CATCGATGCATCA
35265 CTCTAAAAAT
Statistics
Matches: 115, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 42 0.37
65 64 0.56
66 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (63 bp):
CATCGATGCATCAAATGCATTCGATGTTTCAAAATATCCAGAGTGCATCGATGCATGGTGGTG
Found at i:35579 original size:12 final size:12
Alignment explanation
Indices: 35562--35592 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35552 TTTTCTAAAA
35562 TTTGAAATCAAT
1 TTTGAAATCAAT
35574 TTTGAAATCAAT
1 TTTGAAATCAAT
35586 TTTGAAA
1 TTTGAAA
35593 AACTACTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (12 bp):
TTTGAAATCAAT
Found at i:35738 original size:2 final size:2
Alignment explanation
Indices: 35733--35758 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35723 GCCAATTGAT
35733 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
35759 GCTTAAGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43951 original size:65 final size:64
Alignment explanation
Indices: 43753--43962 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
43743 TGCATTAAGA
* * ** * * *
43753 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATTGATGTATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTG
* *
43817 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT
**
43880 AA
63 TG
* *
43882 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TT
43946 G
64 G
*
43947 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
43963 CTCTGAAAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 50 0.42
65 61 0.51
67 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:45377 original size:73 final size:72
Alignment explanation
Indices: 45256--45396 Score: 239
Period size: 73 Copynumber: 1.9 Consensus size: 72
45246 TTGAGGTACA
*
45256 AAAATTGGTGGTTACACAAACATTTTAAATATATATATAACACAAACTCATCAAGTAAGATTG-T
1 AAAATTGGTGGTTACACAAACATTTTAAAAATATATATAACACAAACTCATCAAGTAAGATTGCT
45320 TTTCTTT
66 TTTCTTT
*
45327 AAAATTGGTGGTTACACATAACCATTTTAAAAATATATATAACACGAACTCATCAAGTAAGATTG
1 AAAATTGGTGGTTACACA-AA-CATTTTAAAAATATATATAACACAAACTCATCAAGTAAGATTG
45392 CTTTT
64 CTTTT
45397 TCTAAAGATT
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
71 18 0.28
72 2 0.03
73 41 0.63
74 4 0.06
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (72 bp):
AAAATTGGTGGTTACACAAACATTTTAAAAATATATATAACACAAACTCATCAAGTAAGATTGCT
TTTCTTT
Found at i:45897 original size:24 final size:24
Alignment explanation
Indices: 45870--45926 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
45860 CGCCGATGAT
45870 TATTATTTTTC-TTGTTCT-TTTTCA
1 TATT-TTTTTCTTTGTT-TATTTTCA
*
45894 TA-TTTTTTCTTTGTTTATTTTCT
1 TATTTTTTTCTTTGTTTATTTTCA
45917 TATTTTTTTC
1 TATTTTTTTC
45927 ACTTTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 7 0.24
23 13 0.45
24 9 0.31
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.75
Consensus pattern (24 bp):
TATTTTTTTCTTTGTTTATTTTCA
Found at i:45903 original size:22 final size:23
Alignment explanation
Indices: 45875--45924 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
45865 ATGATTATTA
45875 TTTTTC-TTGTTCT-TTTTCATAT
1 TTTTTCTTTGTT-TATTTTCATAT
*
45897 TTTTTCTTTGTTTATTTTCTTAT
1 TTTTTCTTTGTTTATTTTCATAT
45920 TTTTT
1 TTTTT
45925 TCACTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (23 bp):
TTTTTCTTTGTTTATTTTCATAT
Found at i:45964 original size:19 final size:21
Alignment explanation
Indices: 45942--45980 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45932 TAAATAAGAA
45942 TTTCTCT-CT-TTGTGACACT
1 TTTCTCTGCTCTTGTGACACT
45961 TTTCTCTGCTCTTGTGACAC
1 TTTCTCTGCTCTTGTGACAC
45981 GCTTTTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.10, C:0.28, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTCTCTGCTCTTGTGACACT
Found at i:46005 original size:24 final size:24
Alignment explanation
Indices: 45960--46005 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
45950 TTTGTGACAC
*
45960 TTTTCTCTGCTCTTGTGACACGCT
1 TTTTCTCTGCTCTGGTGACACGCT
* *
45984 TTTTCTCTGTTCTGGTGGCACG
1 TTTTCTCTGCTCTGGTGACACG
46006 TTCTTTATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.07, C:0.26, G:0.22, T:0.46
Consensus pattern (24 bp):
TTTTCTCTGCTCTGGTGACACGCT
Found at i:47807 original size:21 final size:20
Alignment explanation
Indices: 47760--47798 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
47750 ATTATTATTA
47760 TAATTTTTAATTATTTTTTT
1 TAATTTTTAATTATTTTTTT
47780 TGAATTTTTAATTATTTTT
1 T-AATTTTTAATTATTTTT
47799 AATTTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TAATTTTTAATTATTTTTTT
Found at i:47901 original size:38 final size:38
Alignment explanation
Indices: 47823--47985 Score: 119
Period size: 39 Copynumber: 4.3 Consensus size: 38
47813 ATATTTTAAT
* * *
47823 AATAATATAAATATT-ATTTTAATA-TTTTAATATTTTTA
1 AATAATATTAAT-TTAATTTAAATATTTTTAATA-TTATA
*
47861 AATAATATTAATTT-ATGTAAATATTTTTAAATATTATA
1 AATAATATTAATTTAATTTAAATATTTTT-AATATTATA
* *
47899 AAT-TTATT-TTTTAAATTTTAAATATTTTTAAATATTATA
1 AATAATATTAATTT-AA-TTTAAATATTTTT-AATATTATA
* *
47938 AAT-TTATT-TTTTAAATTTAAATATTTTTAAT-TTATA
1 AATAATATTAATTT-AATTTAAATATTTTTAATATTATA
*
47974 TA-AATATTAATT
1 AATAATATTAATT
47986 AAATATTTAA
Statistics
Matches: 108, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
36 13 0.12
37 18 0.17
38 36 0.33
39 41 0.38
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.56
Consensus pattern (38 bp):
AATAATATTAATTTAATTTAAATATTTTTAATATTATA
Found at i:47912 original size:22 final size:22
Alignment explanation
Indices: 47884--47953 Score: 105
Period size: 22 Copynumber: 3.4 Consensus size: 22
47874 TATGTAAATA
47884 TTTTTAAATATTATAAATTTAT
1 TTTTTAAATATTATAAATTTAT
47906 TTTTTAAAT-TT-TAAA--TA-
1 TTTTTAAATATTATAAATTTAT
47923 TTTTTAAATATTATAAATTTAT
1 TTTTTAAATATTATAAATTTAT
47945 TTTTTAAAT
1 TTTTTAAAT
47954 TTAAATATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
17 9 0.21
18 4 0.09
19 4 0.09
20 4 0.09
21 4 0.09
22 18 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTAAATATTATAAATTTAT
Found at i:47921 original size:39 final size:38
Alignment explanation
Indices: 47878--47967 Score: 171
Period size: 39 Copynumber: 2.3 Consensus size: 38
47868 TTAATTTATG
47878 TAAATATTTTTAAATATTATAAATTTATTTTTTAAATTT
1 TAAATATTTTTAAATATTATAAATTTATTTTTTAAA-TT
47917 TAAATATTTTTAAATATTATAAATTTATTTTTTAAATT
1 TAAATATTTTTAAATATTATAAATTTATTTTTTAAATT
47955 TAAATATTTTTAA
1 TAAATATTTTTAA
47968 TTTATATAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 15 0.29
39 36 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (38 bp):
TAAATATTTTTAAATATTATAAATTTATTTTTTAAATT
Found at i:47923 original size:68 final size:68
Alignment explanation
Indices: 47812--47944 Score: 182
Period size: 68 Copynumber: 2.0 Consensus size: 68
47802 TTATTTACAT
*
47812 AATATTTTAATAATAATATAAATATTATTTTAATATTTTAATATTTTTAAATAATATTAATTTAT
1 AATATTTTAATAATAATATAAATATTATTTTAATATTTTAATATTTTTAAATAATATAAATTTAT
47877 GTA
66 GTA
* * *
47880 AATATTTTTA-AATATTATAAAT-TTATTTTTTAA-ATTTTAAATATTTTTAAATATTATAAATT
1 AATATTTTAATAATAATATAAATATTA--TTTTAATATTTT-AATATTTTTAAATAATATAAATT
47942 TAT
63 TAT
47945 TTTTTAAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
66 3 0.05
67 16 0.28
68 39 0.67
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (68 bp):
AATATTTTAATAATAATATAAATATTATTTTAATATTTTAATATTTTTAAATAATATAAATTTAT
GTA
Found at i:47994 original size:38 final size:38
Alignment explanation
Indices: 47878--47995 Score: 102
Period size: 38 Copynumber: 3.1 Consensus size: 38
47868 TTAATTTATG
* *
47878 TAAATATTTTTAAATATTATA-AATTTATTTTTTAAAT-TT
1 TAAATATTTTT-AAT-TTATATAA-ATATTATTTAAATATT
* *
47917 TAAATATTTTTAA-ATATTATAAAT-TTATTTTTTAA-ATT
1 TAAATATTTTTAATTTA-TATAAATATTA--TTTAAATATT
*
47955 TAAATATTTTTAATTTATATAAATATTAATTAAATATT
1 TAAATATTTTTAATTTATATAAATATTATTTAAATATT
47993 TAA
1 TAA
47996 TAACAAAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
36 4 0.06
37 7 0.11
38 37 0.58
39 16 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (38 bp):
TAAATATTTTTAATTTATATAAATATTATTTAAATATT
Found at i:48095 original size:19 final size:20
Alignment explanation
Indices: 48063--48111 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
48053 ACAAATAATT
48063 AAATA-TTAATAT-AATAACA
1 AAATATTTAATATAAATAA-A
*
48082 AAATATTTAA-ATAAATTAA
1 AAATATTTAATATAAATAAA
48101 AAATATTTAAT
1 AAATATTTAAT
48112 TTAACATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATTTAATATAAATAAA
Found at i:55811 original size:56 final size:55
Alignment explanation
Indices: 55725--55841 Score: 153
Period size: 56 Copynumber: 2.1 Consensus size: 55
55715 ATATTTGGGT
* * * *
55725 CCAAGACATTTGTGCAAGCATCCGACAGGGAGGTTCAAGATAGAATGTTGAGCATG
1 CCAAGACATTGGTGCAAGCATCCGACAGGGAGGCTCAAGATAG-ATATCGAGCATG
* ** *
55781 CCAAGACATTGGTTCAAGTGTCCGACAGGGAGGCTCAAGATAGATATCGAGCTTG
1 CCAAGACATTGGTGCAAGCATCCGACAGGGAGGCTCAAGATAGATATCGAGCATG
55836 CCAAGA
1 CCAAGA
55842 TCACCAGACT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 15 0.28
56 38 0.72
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.21
Consensus pattern (55 bp):
CCAAGACATTGGTGCAAGCATCCGACAGGGAGGCTCAAGATAGATATCGAGCATG
Found at i:56158 original size:36 final size:36
Alignment explanation
Indices: 56097--56195 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 36
56087 TCTGATCTTA
* *
56097 CTTCACTACTCTTTTTGTGATGGCTTGATTTGCATTG
1 CTTCACTACTC-TTTTGTGAAGGCTTGATTTGCAATG
*
56134 CTTCACTACTCTTTTGTGAAGGCTTTATTTGCAATG
1 CTTCACTACTCTTTTGTGAAGGCTTGATTTGCAATG
* *
56170 CTTCA--A-TCTTGTGTGAAGACTTGATT
1 CTTCACTACTCTTTTGTGAAGGCTTGATT
56196 GACTTGAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
33 17 0.30
34 1 0.02
36 27 0.48
37 11 0.20
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTCACTACTCTTTTGTGAAGGCTTGATTTGCAATG
Found at i:58296 original size:3 final size:3
Alignment explanation
Indices: 58288--58313 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58278 CCAAGGTTTC
58288 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
58314 AATGTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:60615 original size:65 final size:61
Alignment explanation
Indices: 60532--60687 Score: 161
Period size: 61 Copynumber: 2.5 Consensus size: 61
60522 CTGAAGGTTT
* * * *
60532 ATATTAGCACTAGTGTGTAAGGACACTAAGTGCAGGTGGTGGGCACGACCTTATGTGTCATA-TC
1 ATATTAGCACTAGAGTGTAA--AC-CT-AGTGCAGGTGGTAGGCACGACATTATATGTCA-AGTC
60596 C
61 C
* * *
60597 ATATTAGCACTAGAGTGTAAACCTAGTGTAGTTGGTAGGTACGACATTATATGTCAAGTCC
1 ATATTAGCACTAGAGTGTAAACCTAGTGCAGGTGGTAGGCACGACATTATATGTCAAGTCC
* * * *
60658 AAATTAGAACTAGAGTGTATACTTAGTGCA
1 ATATTAGCACTAGAGTGTAAACCTAGTGCA
60688 AGTTTAGTAC
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
60 1 0.01
61 54 0.69
62 2 0.03
63 2 0.03
65 19 0.24
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (61 bp):
ATATTAGCACTAGAGTGTAAACCTAGTGCAGGTGGTAGGCACGACATTATATGTCAAGTCC
Found at i:63481 original size:20 final size:21
Alignment explanation
Indices: 63456--63511 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
63446 GGATTTCAGG
63456 CCAAGAGTATCGATACTTT-C
1 CCAAGAGTATCGATACTTTAC
* ***
63476 CCAAGATTATATTTACTTTAC
1 CCAAGAGTATCGATACTTTAC
63497 CCAAGAGTATCGATA
1 CCAAGAGTATCGATA
63512 TTTTTTAAGA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (21 bp):
CCAAGAGTATCGATACTTTAC
Found at i:63616 original size:20 final size:20
Alignment explanation
Indices: 63591--63645 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
63581 TACTTTACCT
63591 TAGGGTATCGTTACTGCAAG
1 TAGGGTATCGTTACTGCAAG
*
63611 TAGGGTATCGTTACTTCAAG
1 TAGGGTATCGTTACTGCAAG
* * *
63631 CAGAGTATCGATACT
1 TAGGGTATCGTTACT
63646 ACTCACTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (20 bp):
TAGGGTATCGTTACTGCAAG
Found at i:66152 original size:14 final size:14
Alignment explanation
Indices: 66133--66179 Score: 94
Period size: 14 Copynumber: 3.4 Consensus size: 14
66123 CACACAATAG
66133 AAAATAATTTTCTA
1 AAAATAATTTTCTA
66147 AAAATAATTTTCTA
1 AAAATAATTTTCTA
66161 AAAATAATTTTCTA
1 AAAATAATTTTCTA
66175 AAAAT
1 AAAAT
66180 TCTTTCGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAATAATTTTCTA
Found at i:69429 original size:3 final size:3
Alignment explanation
Indices: 69423--69494 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
69413 GATGATGATG
69423 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
69471 ATA ATA AGA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
69495 TGATTATGTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:72834 original size:3 final size:3
Alignment explanation
Indices: 72805--72883 Score: 86
Period size: 3 Copynumber: 25.7 Consensus size: 3
72795 TTGGGTTTTG
* * * *
72805 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TAA TTA TTA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
72852 TAA TAA TAA TAA TTA TTA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
72884 TAAATAACAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
3 60 0.91
4 6 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:72856 original size:18 final size:18
Alignment explanation
Indices: 72833--72882 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
72823 TATATTAATA
72833 ATAATAATAATAATTATT
1 ATAATAATAATAATTATT
72851 ATAATAATAATAATTATT
1 ATAATAATAATAATTATT
72869 ATAATAATAATAAT
1 ATAATAATAATAAT
72883 ATAAATAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATAATAATAATTATT
Found at i:73390 original size:113 final size:113
Alignment explanation
Indices: 73115--73897 Score: 1281
Period size: 113 Copynumber: 7.0 Consensus size: 113
73105 TAGAGTCATT
* ** * * *
73115 CAAAAGGTTGAATAAGCTCTTCTTATTATGAAC-T-TTC-T-CTTCTTTAGATGAGTTCTTTTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * * * * **
73176 TTATGAACTTTCTCTGTAAAGGTTGATCCATTAAGTGATGAATTCAAG
66 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
*
73224 CAAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
73288 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
* *
73336 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCCGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
73401 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATAGATTTGAG
66 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
73449 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
73514 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
*
73562 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
73627 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
73675 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
73740 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
*
73788 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCCGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * *
73853 TTATGAACTCGAACT-GACACTGTTGATCCATTAAATGATGGATTT
66 TTATGAACTCGAACTGGA-AAAGTTGATCCATCAAGTGATGGATTT
73898 AAATCTTTGC
Statistics
Matches: 637, Mismatches: 31, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
108 23 0.04
109 6 0.01
110 3 0.00
111 1 0.00
112 64 0.10
113 540 0.85
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAAAGTTGATCCATCAAGTGATGGATTTGAG
Found at i:74968 original size:83 final size:83
Alignment explanation
Indices: 74820--75205 Score: 664
Period size: 83 Copynumber: 4.7 Consensus size: 83
74810 GGTTTCATAT
* * *
74820 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
* *
74885 TTCAATAACTGGTTTTAC
66 TTCAATGATTGGTTTTAC
* * *
74903 CAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATTCTATGATCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
74968 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
74986 CAAACCAGATCAGATAACTAAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
75051 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
*
75069 CAAACCAGATCAGATAACTCAAATAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
75134 TTCAATGATTGGTTTTAC
66 TTCAATGATTGGTTTTAC
* *
75152 CAAACCAGATCAGATAAATCAAAGAACACTTCCAGAAGATGCTATGAGTACATT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
75206 GCATTTGTTC
Statistics
Matches: 286, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 286 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAA
TTCAATGATTGGTTTTAC
Found at i:76356 original size:1 final size:1
Alignment explanation
Indices: 76352--76413 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
76342 TTGACCCCCC
* * * * * * * *
76352 TTTTTTCTTTTTTTTTCTCTTTTTTTCTTTTTTCTTTTTTTCTTTTTTTTTCTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
76414 CTCTTCAAGC
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:76365 original size:8 final size:8
Alignment explanation
Indices: 76362--76418 Score: 73
Period size: 8 Copynumber: 7.2 Consensus size: 8
76352 TTTTTTCTTT
76362 TTTTTTCTC
1 TTTTTT-TC
76371 TTTTTTTC
1 TTTTTTTC
76379 -TTTTTTC
1 TTTTTTTC
76386 TTTTTTTC
1 TTTTTTTC
76394 TTTTTTT-
1 TTTTTTTC
*
76401 TTCTTTTC
1 TTTTTTTC
*
76409 TTTTTCTC
1 TTTTTTTC
76417 TT
1 TT
76419 CAAGCATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
7 13 0.30
8 24 0.56
9 6 0.14
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:76365 original size:10 final size:10
Alignment explanation
Indices: 76352--76415 Score: 75
Period size: 10 Copynumber: 6.8 Consensus size: 10
76342 TTGACCCCCC
76352 TTTTTTCTTT
1 TTTTTTCTTT
*
76362 TTTTTTCTCT
1 TTTTTTCTTT
76372 TTTTTTC---
1 TTTTTTCTTT
76379 TTTTTTC--T
1 TTTTTTCTTT
76387 TTTTTTCTTT
1 TTTTTTCTTT
76397 TTTTTTCTTT
1 TTTTTTCTTT
76407 TCTTTTTCT
1 T-TTTTTCT
76416 CTTCAAGCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
7 7 0.14
8 7 0.14
10 28 0.57
11 7 0.14
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:76382 original size:15 final size:15
Alignment explanation
Indices: 76359--76418 Score: 70
Period size: 15 Copynumber: 4.0 Consensus size: 15
76349 CCCTTTTTTC
76359 TTTTT-TTTTCTCTT
1 TTTTTCTTTTCTCTT
*
76373 TTTTTCTTTTTTCTT
1 TTTTTCTTTTCTCTT
*
76388 TTTTTCTTTT-TTTT
1 TTTTTCTTTTCTCTT
76402 TCTTTTCTTTTTCTCTT
1 T-TTTTC-TTTTCTCTT
76419 CAAGCATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
14 9 0.23
15 23 0.59
16 4 0.10
17 3 0.08
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTTCTCTT
Found at i:76395 original size:23 final size:23
Alignment explanation
Indices: 76352--76418 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
76342 TTGACCCCCC
*
76352 TTTTTTCTTTT-TTTTTCTCTTT
1 TTTTTTCTTTTCTTTTTTTCTTT
76374 TTTTCTT-TTTTCTTTTTTTCTTT
1 TTTT-TTCTTTTCTTTTTTTCTTT
*
76397 TTTTTTCTTTTCTTTTTCTCTT
1 TTTTTTCTTTTCTTTTTTTCTT
76419 CAAGCATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.25
23 30 0.75
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (23 bp):
TTTTTTCTTTTCTTTTTTTCTTT
Found at i:83768 original size:15 final size:15
Alignment explanation
Indices: 83745--83776 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
83735 TGAAATGAAT
83745 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
83760 AATGCATGTATGCAA
1 AATGAATGTATGCAA
83775 AA
1 AA
83777 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:89251 original size:3 final size:3
Alignment explanation
Indices: 89220--89282 Score: 74
Period size: 3 Copynumber: 20.7 Consensus size: 3
89210 TTGGGTTTTG
* * *
89220 TAA TAT TAA TAAA TAA T-A TATA TAT TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
89266 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
89283 TAAATAACAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:89288 original size:9 final size:10
Alignment explanation
Indices: 89231--89289 Score: 67
Period size: 9 Copynumber: 6.5 Consensus size: 10
89221 AATATTAATA
89231 AATAATATAT
1 AATAATATAT
*
89241 -ATATTA-AT
1 AATAATATAT
89249 AATAAT-TAT
1 AATAATATAT
89258 AATAATA-AT
1 AATAATATAT
89267 AATAATA-AT
1 AATAATATAT
89276 AATAATATA-
1 AATAATATAT
89285 AATAA
1 AATAA
89290 CATTTAAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
8 2 0.05
9 40 0.93
10 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATAATATAT
Found at i:91626 original size:20 final size:21
Alignment explanation
Indices: 91601--91640 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
91591 TTTGAGTTTG
*
91601 GGTTGT-GCACGCTGGGGTGC
1 GGTTGTGGCACGCTAGGGTGC
91621 GGTTGTGGCACGCTAGGGTG
1 GGTTGTGGCACGCTAGGGTG
91641 TGGCTGGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.07, C:0.17, G:0.50, T:0.25
Consensus pattern (21 bp):
GGTTGTGGCACGCTAGGGTGC
Found at i:93610 original size:25 final size:25
Alignment explanation
Indices: 93554--93610 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
93544 TCCTATATGG
* * *
93554 CATGATTGTCTGTATGTTTTTACTG
1 CATGATTGTATGTATGCTTTTACTA
*
93579 CACGATTGTATGTATGCTTTTA-TAA
1 CATGATTGTATGTATGCTTTTACT-A
93604 CATGATT
1 CATGATT
93611 TAGTCTATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (25 bp):
CATGATTGTATGTATGCTTTTACTA
Found at i:102413 original size:15 final size:15
Alignment explanation
Indices: 102393--102426 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
102383 CCGTAGGACC
102393 ACTACATCCCGAAGA
1 ACTACATCCCGAAGA
*
102408 ACTACATCCCGAAGG
1 ACTACATCCCGAAGA
102423 ACTA
1 ACTA
102427 TTATACCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.32, G:0.15, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGA
Found at i:102575 original size:23 final size:26
Alignment explanation
Indices: 102538--102606 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
102528 TTCTCTTGTG
102538 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
102562 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
102587 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
102607 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:102588 original size:12 final size:12
Alignment explanation
Indices: 102571--102606 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
102561 TATCATGTTC
102571 TCATATCACATG
1 TCATATCACATG
*
102583 TCATATCACATA
1 TCATATCACATG
102595 TCATATCACATG
1 TCATATCACATG
102607 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:109260 original size:15 final size:15
Alignment explanation
Indices: 109240--109273 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
109230 CCGTAGGACC
109240 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
*
109255 ACTACATCTCGAAGG
1 ACTACATCCCGAAGG
109270 ACTA
1 ACTA
109274 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:109381 original size:23 final size:26
Alignment explanation
Indices: 109344--109412 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
109334 TTCTCTTGTG
109344 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
109368 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
**
109393 ATCACATAT-T-ATATCACATG
1 ATCATGTATCTCATATCACATG
109413 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 10 0.25
26 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:109394 original size:12 final size:12
Alignment explanation
Indices: 109377--109412 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
109367 TATCATGTTC
109377 TCATATCACATG
1 TCATATCACATG
*
109389 TCATATCACATA
1 TCATATCACATG
*
109401 TTATATCACATG
1 TCATATCACATG
109413 AACATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (12 bp):
TCATATCACATG
Found at i:115063 original size:20 final size:20
Alignment explanation
Indices: 115021--115065 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
115011 TTTGGTCAAA
* *
115021 GTCAACGGTCAACGGGTCGG
1 GTCAACGGTCAACGAGTCAG
115041 GTCAACGAGTCAAC-AGTCAG
1 GTCAACG-GTCAACGAGTCAG
115061 GTCAA
1 GTCAA
115066 ACCGGGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.16
Consensus pattern (20 bp):
GTCAACGGTCAACGAGTCAG
Found at i:116699 original size:19 final size:18
Alignment explanation
Indices: 116677--116727 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
116667 TTGCAAAAAA
116677 GAAAAAAGAAATGAGAGTT
1 GAAAAAAGAAATGAGAG-T
*
116696 G-AAAAAGACATTGAGAGT
1 GAAAAAAGA-AATGAGAGT
116714 GAAGAAAAAGAAAT
1 G-A-AAAAAGAAAT
116728 TGGATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 9 0.35
19 8 0.31
20 2 0.08
21 7 0.27
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (18 bp):
GAAAAAAGAAATGAGAGT
Done.